 |
 |
 |
 |
|
 |
||||
 |
||||
 |
||||
 |
||||
SNP
OF OILPALM
SNP_indel_type | SNP_cutter enzyme | Primer Sequences | GC % | Annealing temp | Product size | Product after SNP cutter | |
Contg1:
T indel, G-T, A-G, C-A, C indel
T inde, l C-T, G-C, T-G, A-T A indel T indel, G-T, A-G, T-A,T indel
C indel, A-C, G-A, T-G, C-T, C indel
T indel, C-T, A-C, T-A, C-T C indel
A indel, T-A, C-T, A-C, T-A T indel
G indel, A-G, C-A, A-C, T-A, T indel
| Fat I
CviA II
N1aIII
| FOR | AGGCTGCATGGATATTGG | 50.00 | 56.98 | 526 | 588,92 |
REV | GAATGCAGACCATCCAAAGC | 50.00 | 60.61 | ||||
contg 2(i):
T indel, T_C, C-A, A-C, G-C, C-G, G-C, C-A, A-G, G-A, A-C, C-T, T-A, A-C, C-T, T-G, G-A, A-C, C-T, T-A, A-C, C-G, G-A, A-G, G-T, T-C, C-T, T-C, C indel | HinP1I, BstNI, Bmr I, Hinf I | FOR | ATGTCGAAGGCTCGGGTCCA | 60.00 | 67.43 | 544 | 90 - 553 |
REV | TGGTAGAATTCGGCAAGTCC | 50.00 | 60.07 | ||||
contg 2(ii):
A indel, A-T, T-G, G-A, A-T, T-A, A-T, T-G, G-A, A-G, G-T, T-G, G-T, T-G, G-A, A-G, G-A, A-G, G-T, T-C, C-G, G-A, A-G, G-A, A-G, G-A, A indel, G-A | Mn1 I, BtsCI, Fok I, Mn1I, Hpy188III | FOR | ATGTCGAAGGCTCGGGTCCA | 60.00 | 67.43 | 544 | 146-493 |
REV | TGGTAGAATTCGGCAAGTCC | 50.00 | 60.07 | ||||
contg 2(iii):
T indel, T-A, A-T, T-G, G-T, T-A, A-G, G-C, C-A, A-C, C-A, A-T, T-G, G-A, A-G, G-C, C-G, G-A, A-T, T-G, G-C, C-A, A-T, T-C, C-A, A-G, G-A, A-T, T-C, C-A, A-G, G-A, A-T, T-C, C indel | SfaNI, HpyCH4V, BtgZI, HpY188III, BstYI | FOR | ATGTCGAAGGCTCGGGTCCA | 60.00 | 67.43 | 544 | 206-437 |
REV | TGGTAGAATTCGGCAAGTCC | 50.00 | 60.07 | ||||
contg 2(iv):
A indel, A-G, G-A, A-T, T-A, A-G, G-A, A-G, G-A, A-T, T-A, A-T, T-A, A-C, C-T, T-C, C-A, A-G, G-A, A-C, C-T, T-C, C-T, T-G, G-T, T indel | MboII, Mse I, HpY188I,AcuI | FOR | ATGTCGAAGGCTCGGGTCCA | 60.00 | 67.43 | 544 | 254-389 |
REV | TGGTAGAATTCGGCAAGTCC | 50.00 | 60.07 | ||||
contg 2(v):
T indel, T-C, C-T, T-G, G-A, A-T, T-A, A-T, T-G, G-T, T-C, C-A, A-G, G-A, A-G, G-A, A-T, T-C, C-A, A-G, G-A, A-T, T-C, C-A, A-G, G-A, A-T, T-C, C-A, A-C, C-T, T-C, C-T, T indel | Hind III, Dpn II, MboI, Hpy1881, EcoRI, AluI | FOR | ATGTCGAAGGCTCGGGTCCA | 60.00 | 67.43 | 544 | 325-318 |
REV | TGGTAGAATTCGGCAAGTCC | 50.00 | 60.07 | ||||
contg 2(vi):
A indel, A-C, C-A, A-G, G-T, T-A, A-C, C-A, A-G, G-A, A-T, T-C, C-A, A-T, T-C, C-T, T-A, A-T, T-A, A-T, T-C, C-A, A-C, C-G, G-C, C-T, T-G, G-A, A-C, C-G, G indel | Hpy166 II, HpyCH4 III, CviQI, Rsa I | FOR | ATGTCGAAGGCTCGGGTCCA | 60.00 | 67.43 | 544 | 373-270 |
REV | TGGTAGAATTCGGCAAGTCC | 50.00 | 60.07 | ||||
contg 2(vii):
T indel, T-A, A-T, T-A, A-T, T-G, G-A, A-C, C-T, T-C , C-T, T-C, C-A, A-G, G-C, C-A, A-T, T-A, A-G, G-A, A-T, T-A, A-C, C-T, T-G, G-C, C-A, A-T, T-C, C-A, A indel | Sm1I | FOR | ATGTCGAAGGCTCGGGTCCA | 60.00 | 67.43 | 544 | 442-201 |
REV | TGGTAGAATTCGGCAAGTCC | 50.00 | 60.07 | ||||
contg2 (viii):
T indel, T-C, C-A, A-C, C-T, T-C, C-A, A-C, C-A, A-T, T-G, G-T, T-A, A-T, T-G, G-A, A-T, T-C, C-G, G-A, A-T, T-C, C-A, A-T, T-G, G-A, A-C, C-T, T-C, C-G, G-A, A indel | Mn1I, Taq I, BfuCI ,DpnI, Fat I | FOR | ATGTCGAAGGCTCGGGTCCA | 60.00 | 67.43 | 544 | 512-131 |
REV | TGGTAGAATTCGGCAAGTCC | 50.00 | 60.07 | ||||
